RESUMO

NMR-based metabolomics aims at recovering biological information by comparing spectral data from samples of biological interest and appropriate controls. Any statistical analysis performed on the data matrix relies on the proper peak alignment to produce meaningful results. Through the last decades, several peak alignment algorithms have been proposed, as well as alternatives like spectral binning or strategies for annotation and quantification, the latter depending on reference databases. Most of the alignment algorithms, mainly based on segmentation of the spectra, present limitations for regions with peak overlap or cases of frequency order exchange. Here, we present our multiplet-assisted peak alignment algorithm, a new methodology that consists of aligning peaks by matching multiplet profiles of f1 traces from J-resolved spectra. A correspondence matrix with the linked f1 traces is built, and multivariate data analysis can be performed on it to obtain useful information from the data, overcoming the issues of peak overlap and frequency crossovers. Statistical total correlation spectroscopy can be applied on the matrix as well, toward a better identification of molecules of interest. The results can be queried on one-dimensional (1D) 1H databases or can be directly coupled to our previously published Chemical Shift Multiplet Database.

Assuntos

RESUMO

NMR-based metabolomics requires proper identification of metabolites to draw conclusions from the system under study. Normally, multivariate data analysis is performed using 1D 1H NMR spectra, and identification of peaks (and then compounds) relevant to the classification is accomplished using database queries as a first step. 1D 1H NMR spectra of complex mixtures often suffer from peak overlap. To overcome this issue, several studies employed the projections of the (tilted and symmetrized) 2D 1H J-resolved (JRES) spectra, p-JRES, which are similar to 1D 1H decoupled spectra. Nonetheless, there are no public databases available that allow searching for chemical shift spectral data for multiplets. We present the Chemical Shift Multiplet Database (CSMDB), built utilizing JRES spectra obtained from the Birmingham Metabolite Library. The CSMDB provides scoring accounting for both matched and unmatched peaks from a query list and the database hits. This input list is generated from a projection of a 2D statistical correlation analysis on the JRES spectra, p-(JRES-STOCSY), being able to compare the multiplets for the matched peaks, in essence, the f1 traces from the JRES-STOCSY spectrum and from the database hit. The inspection of the unmatched peaks for the database hit allows the retrieval of peaks in the query list that have a decreased correlation coefficient due to low intensities. The CSMDB is coupled to "ConQuer ABC", which permits the assessment of biological correlation by means of consecutive queries with the unmatched peaks in the first and subsequent queries.

Assuntos

RESUMO

Transferon® is a blood product with immunomodulatory properties constituted by a complex mixture of peptides obtained from a human dialyzable leukocyte extract (DLE). Due to its complex nature, it is necessary to demonstrate batch consistency in its biological activity. Potency is the quantitative measure of biological activity and is also a quality attribute of drugs. Here we developed and validated a proliferation assay using Jurkat cells exposed to azathioprine, which is intended to determine the potency of Transferon® according to international guidelines for pharmaceuticals. The assay showed a linear response (2.5 to 40 µg/mL), coefficients of variation from 0.7 to 13.6% demonstrated that the method is precise, while r2 = 0.97 between the nominal and measured values obtained from dilutional linearity showed that the method is accurate. We also demonstrated that the cell proliferation response was specific for Transferon® and was not induced by its vehicle nor by other peptide complex mixtures (glatiramer acetate or hydrolyzed collagen). The bioassay validated here was used to assess the relative potency of eight released batches of Transferon® with respect to a reference standard, showing consistent results. The collective information from the validation and the assessment of several batches indicate that the bioassay is suitable for the release of Transferon®.

Assuntos

RESUMO

The identification of metabolites in complex biological matrices is a challenging task in 1D 1H-NMR-based metabolomics studies. Statistical total correlation spectroscopy (STOCSY) has emerged for aiding the structural elucidation by revealing the peaks that present a high correlation to a driver peak of interest (which would likely belong to the same molecule). However, in these studies, the signals from metabolites are normally present as a mixture of overlapping resonances, limiting the performance of STOCSY. As an alternative to avoid the overlap issue, 2D 1H homonuclear J-resolved (JRES) spectra were projected, in their usual tilted and symmetrized processed form, and STOCSY was applied on these 1D projections (p-JRES-STOCSY). Nonetheless, this approach suffers in cases where the signals are very close. In addition, STOCSY was applied to the whole JRES spectra (also tilted) to identify correlated multiplets, although the overlap issue in itself was not addressed directly and the subsequent search in databases is complicated in cases of higher order coupling. With these limitations in mind, in the present work, we propose a new methodology based on the application of STOCSY on a set of nontilted JRES spectra, detecting peaks that would overlap in 1D spectra of the same sample set. Correlation comparison analysis for peak overlap detection (COCOA-POD) is able to reconstruct projected 1D STOCSY traces that result in more suitable database queries, as all peaks are summed at their f2 resonances instead of the resonance corresponding to the multiplet center in the tilted JRES spectra. (The peak dispersion and resolution enhancement gained are not sacrificed by the projection.) Besides improving database queries with better peak lists obtained from the projections of the 2D STOCSY analysis, the overlap region is examined, and the multiplet itself is analyzed from the correlation trace at 45° to obtain a cleaner multiplet profile, free from contributions from uncorrelated neighboring peaks.

Assuntos

RESUMO

Coal mining and combustion generating huge amounts of bottom and fly ash are major causes of environmental pollution and health hazards due to the release of polycyclic aromatic hydrocarbons (PAH) and heavy metals. The Candiota coalfield in Rio Grande do Sul, is one of the largest open-cast coal mines in Brazil. The aim of this study was to evaluate genotoxic and mutagenic effects of coal, bottom ash and fly ash samples from Candiota with the comet assay (alkaline and modified version) and micronucleus test using the lung fibroblast cell line (V79). Qualitative and quantitative analysis of PAH and inorganic elements was carried out by High Performance Liquid Chromatography (HPLC) and by Particle-Induced X-ray Emission (PIXE) techniques respectively. The samples demonstrated genotoxic and mutagenic effects. The comet assay modified using DNA-glicosilase formamidopirimidina (FPG) endonuclease showed damage related to oxidative stress mechanisms. The amount of PAHs was higher in fly ash followed by pulverized coal. The amount of inorganic elements was highest in fly ash, followed by bottom ash. It is concluded that the samples induce DNA damage by mechanisms that include oxidative stress, due to their complex composition, and that protective measures have to be taken regarding occupational and environmental hazards.

Assuntos

RESUMO

We introduce a new approach for resolving the NMR spectra of mixtures that relies on the mutual diffusion of dissolved species when a concentration gradient is established within the NMR tube. This is achieved by cooling down a biphasic mixture of triethylamine and deuterated water below its mixing temperature, where a single phase is expected. Until equilibrium is reached, a gradient of concentration, from 'pure' triethylamine to 'pure' water, establishes within the tube. The amount of time required to reach this equilibrium is controlled by the mutual diffusion coefficient of both species. Moreover, a gradient of concentration exists for each additional compound dissolved in this system, related to the partition coefficient for that compound in the original biphasic state. Using slice selective experiments, it was possible to measure these concentration gradients and use them to separate signals from all the present species. We show the results acquired for a mixture composed of n-octanol, methanol, acetonitrile and benzene and compare them with those obtained by pulse field gradient NMR. Copyright © 2016 John Wiley & Sons, Ltd.

RESUMO

Landfills represent a severe environmental problem mainly due to the generation of leachates, and this study aimed to evaluate sublethal effects of a domestic landfill leachate in the freshwater bivalve Corbicula fluminea. Clams were submitted to in situ tests along a stream, at three sites, representing increasing distances from the leachate discharge (Pq1, Pq2, and Pq3), for 1, 5, and 15 days. The following biomarkers were analyzed in the gills and digestive glands: 7-ethoxyresorufin-O-deethylase (EROD) and glutathione S-transferase (GST) activities, multixenobiotic resistance mechanism (MXR), total antioxidant capacity (TAC), reactive oxygen species (ROS), and lipid peroxidation (LPO). Metallothionein (MT) content was determined in the gills and DNA damage in hemocytes. The mortality rate of animals during in situ tests was reduced as the distance from the leachate discharge source increased. On the other hand, biomarker results showed sublethal effects on C. fluminea confined at all sites of PqS. GST, TAC, ROS, and DNA damage were the most significant biomarkers for this species and should be considered for future monitoring and assessment of freshwater environments located in landfill areas.

Assuntos

RESUMO

In this study, we investigated the effects of oxidative stress and hypermethylation through lipid peroxidation and DNA methylation, respectively, in erythrocytes of Oreochromis niloticus exposed to environmental complex mixture of water from Cubatão do Sul River throughout the year. This river is the source of drinking water for the region of Florianópolis, the capital of Santa Catarina State, Brazil. Lipid peroxidation was quantified by the rate of malondialdehyde (MDA) formation, and DNA methylation was quantified by the rate of 5-methyldeoxycytosine (m(5)dC) formation. In all studied sites, the river water samples caused metabolic changes in O. niloticus. MDA formation rates were significantly different when compared to the negative control (except for samples from Site 1 during spring 2010, summer 2011 and fall 2011). All samples (except Site 1, spring 2010) induced increases in the m(5)dC formation rates, and at the end of the study, the values were near the values found in the positive control (potassium dichromate 2.5mg/L). The results showed that samples of environmental complex mixtures of water from Cubatão do Sul River are capable of inducing high levels of oxidative damage and hypermethylation in O. niloticus.

Assuntos

RESUMO

The experiment was carried out to determine the appropriate dose of coconut water as supplement for in vitro cultivation of zygotic embryos from 19 olive genotypes. The isolated embryos of the olive seeds were immersed on culture medium containing 0 (control), 25, 50, and 100mL L-1 of fresh and sterile coconut water and kept for 45 days under controlled environment. The percentage of germination, shoot length, number of roots, number of leaves and number of internodes were measured for all 19 olive genotypes. The ANOVA of the parameters evaluated showed significant genotypes x doses of coconut water interaction for shoot length, number of leaves and number of internodes and the dose of 100mL L-1 produced the best results overall as indicated by the means of measured parameters. However, the study showed the importance of determining the appropriate dose of coconut water for each genotype under consideration as shown by significant genotype x dose of coconut water interaction effect.

O experimento foi realizado para determinar a dose adequada de água de coco como suplemento para cultivo in vitro de embriões zigóticos de 19 genótipos de oliveira. Os embriões isolados das sementes de oliveira foram imersos em meio de cultura contendo 0 (controle), 25, 50, e 100mL L-1 de água de coco fresca e estéril, em condição de ambiente controlado durante 45 dias. A porcentagem de germinação, comprimento da parte aérea, número de raízes, número de folhas e número de internódios foram medidos para todos os 19 genótipos de oliveira. A ANOVA dos parâmetros avaliados apresentou interação significativa entre genótipos e dose de água de coco para o comprimento da parte aérea, número de folhas e número de internódios, e a dose de 100mL L-1, de forma geral, produziu os melhores resultados, como indicado pelas médias dos parâmetros analisados. No entanto, como mostra a interação significativa observada entre genótipos e tratamentos, é importante determinar a dose adequada de água de coco para cada genótipo.

RESUMO

The experiment was carried out to determine the appropriate dose of coconut water as supplement for in vitro cultivation of zygotic embryos from 19 olive genotypes. The isolated embryos of the olive seeds were immersed on culture medium containing 0 (control), 25, 50, and 100mL L-1 of fresh and sterile coconut water and kept for 45 days under controlled environment. The percentage of germination, shoot length, number of roots, number of leaves and number of internodes were measured for all 19 olive genotypes. The ANOVA of the parameters evaluated showed significant genotypes x doses of coconut water interaction for shoot length, number of leaves and number of internodes and the dose of 100mL L-1 produced the best results overall as indicated by the means of measured parameters. However, the study showed the importance of determining the appropriate dose of coconut water for each genotype under consideration as shown by significant genotype x dose of coconut water interaction effect.

O experimento foi realizado para determinar a dose adequada de água de coco como suplemento para cultivo in vitro de embriões zigóticos de 19 genótipos de oliveira. Os embriões isolados das sementes de oliveira foram imersos em meio de cultura contendo 0 (controle), 25, 50, e 100mL L-1 de água de coco fresca e estéril, em condição de ambiente controlado durante 45 dias. A porcentagem de germinação, comprimento da parte aérea, número de raízes, número de folhas e número de internódios foram medidos para todos os 19 genótipos de oliveira. A ANOVA dos parâmetros avaliados apresentou interação significativa entre genótipos e dose de água de coco para o comprimento da parte aérea, número de folhas e número de internódios, e a dose de 100mL L-1, de forma geral, produziu os melhores resultados, como indicado pelas médias dos parâmetros analisados. No entanto, como mostra a interação significativa observada entre genótipos e tratamentos, é importante determinar a dose adequada de água de coco para cada genótipo.

RESUMO

The experiment was carried out to determine the appropriate dose of coconut water as supplement for in vitro cultivation of zygotic embryos from 19 olive genotypes. The isolated embryos of the olive seeds were immersed on culture medium containing 0 (control), 25, 50, and 100mL L-1 of fresh and sterile coconut water and kept for 45 days under controlled environment. The percentage of germination, shoot length, number of roots, number of leaves and number of internodes were measured for all 19 olive genotypes. The ANOVA of the parameters evaluated showed significant genotypes x doses of coconut water interaction for shoot length, number of leaves and number of internodes and the dose of 100mL L-1 produced the best results overall as indicated by the means of measured parameters. However, the study showed the importance of determining the appropriate dose of coconut water for each genotype under consideration as shown by significant genotype x dose of coconut water interaction effect.

O experimento foi realizado para determinar a dose adequada de água de coco como suplemento para cultivo in vitro de embriões zigóticos de 19 genótipos de oliveira. Os embriões isolados das sementes de oliveira foram imersos em meio de cultura contendo 0 (controle), 25, 50, e 100mL L-1 de água de coco fresca e estéril, em condição de ambiente controlado durante 45 dias. A porcentagem de germinação, comprimento da parte aérea, número de raízes, número de folhas e número de internódios foram medidos para todos os 19 genótipos de oliveira. A ANOVA dos parâmetros avaliados apresentou interação significativa entre genótipos e dose de água de coco para o comprimento da parte aérea, número de folhas e número de internódios, e a dose de 100mL L-1, de forma geral, produziu os melhores resultados, como indicado pelas médias dos parâmetros analisados. No entanto, como mostra a interação significativa observada entre genótipos e tratamentos, é importante determinar a dose adequada de água de coco para cada genótipo.